AlfalfaGEDB Alfalfa Gene Editing Database

M. sativa cultivar XinJiangDaYe / MS.gene07054

Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene07054.t1 MTR_7g109510 82.119 151 13 2 1 151 1 137 3.26e-74 218
MS.gene07054.t1 MTR_1g087040 51.370 146 61 3 1 140 1 142 4.07e-39 129
MS.gene07054.t1 MTR_4g070860 48.387 93 47 1 10 101 17 109 1.08e-19 80.5
MS.gene07054.t1 MTR_3g117120 53.012 83 39 0 19 101 27 109 1.13e-19 80.5
MS.gene07054.t1 MTR_1g022495 54.217 83 38 0 19 101 27 109 1.70e-17 74.7
MS.gene07054.t1 MTR_8g086020 40.594 101 55 1 10 105 18 118 8.36e-16 70.5
MS.gene07054.t1 MTR_5g015090 52.857 70 24 1 2 62 32 101 6.42e-13 62.8
MS.gene07054.t1 MTR_4g097440 39.823 113 40 3 7 94 45 154 1.06e-11 60.1
Query id Subject id identity % alignment length mismatches gap openings q. start q. end s. start s. end e-value bit score
MS.gene07054.t1 AT3G62420 46.711 152 70 3 1 149 1 144 1.04e-34 118
MS.gene07054.t1 AT2G18160 44.118 102 52 1 18 119 27 123 1.08e-20 83.6
MS.gene07054.t1 AT1G75390 38.849 139 72 3 19 149 38 171 1.44e-20 83.2
MS.gene07054.t1 AT4G34590 48.810 84 43 0 19 102 24 107 1.47e-19 80.1
MS.gene07054.t1 AT1G75390 49.254 67 34 0 19 85 38 104 5.38e-12 59.7

Find 41 sgRNAs with CRISPR-Local

Find 41 sgRNAs with CRISPR-GE


CRISPR-Local

CRISPR-Local
sgRNA_sequence on_target_score Position Region
TTGTCCGAATCAAGCGATTA+AGG 0.283521 7.2:+5670821 MS.gene07054:CDS
GGCGATTGTTGGAGAACATT+AGG 0.296251 7.2:+5670598 MS.gene07054:CDS
CAGATTGGTTCTTGCATTGA+TGG 0.301394 7.2:+5670856 MS.gene07054:CDS
GGTTCAACGTGTGACGAGTT+CGG 0.348908 7.2:+5670428 MS.gene07054:CDS
GAGCGATGGACGAGAGAAAA+AGG 0.360427 7.2:+5670469 MS.gene07054:CDS
GTTCAACGTGTGACGAGTTC+GGG 0.369000 7.2:+5670429 MS.gene07054:CDS
TGAATCAATTTGAATGGCTT+CGG 0.385700 7.2:+5670407 None:intergenic
GCGATTGTTGGAGAACATTA+GGG 0.409944 7.2:+5670599 MS.gene07054:CDS
CACGGGTTCAGTTGTGGATC+TGG 0.419548 7.2:-5670789 None:intergenic
GTGATCGCCGTGCGGATTCA+CGG 0.422997 7.2:-5670509 None:intergenic
AGTTGTGGATCTGGAATCTT+CGG 0.445106 7.2:-5670780 None:intergenic
AAACGAGAATCGGCGATTGT+TGG 0.446153 7.2:+5670587 MS.gene07054:CDS
AATGCAAACGAAGCCGCTAA+TGG 0.446683 7.2:+5670639 MS.gene07054:CDS
ATCTTCAAGATGAGACAAAC+AGG 0.448219 7.2:+5670559 MS.gene07054:CDS
AACATTAGGGCGAGGGAAGA+AGG 0.454886 7.2:+5670612 MS.gene07054:CDS
ACGTGTGACGAGTTCGGGTT+CGG 0.460336 7.2:+5670434 MS.gene07054:CDS
GACGCCTTAATCGCTTGATT+CGG 0.461919 7.2:-5670825 None:intergenic
AGGCGTCTTCGTCTTCAGAT+TGG 0.488511 7.2:+5670841 MS.gene07054:CDS
TGTCCTCGGAGCTCGGATAC+AGG 0.488969 7.2:+5670662 MS.gene07054:CDS
AAAGCTGAGAGGGAAAAGAA+TGG 0.490064 7.2:+5670741 MS.gene07054:CDS
TCGGGTTCGGACGGTGTGAA+TGG 0.491849 7.2:+5670447 MS.gene07054:CDS
GTGAATCCGCACGGCGATCA+CGG 0.512811 7.2:+5670511 MS.gene07054:CDS
CTAATGGTGTCCTCGGAGCT+CGG 0.524737 7.2:+5670655 MS.gene07054:CDS
TGAATCCGCACGGCGATCAC+GGG 0.531059 7.2:+5670512 MS.gene07054:CDS
ACAGGTTGCGAAACGAGAAT+CGG 0.540937 7.2:+5670577 MS.gene07054:CDS
CCGCACGGCGATCACGGGAG+AGG 0.550454 7.2:+5670517 MS.gene07054:CDS
TGTTGGAGAACATTAGGGCG+AGG 0.554484 7.2:+5670604 MS.gene07054:CDS
ATCTGCCACGGGTTCAGTTG+TGG 0.561631 7.2:-5670795 None:intergenic
AGCTCCGAGGACACCATTAG+CGG 0.564090 7.2:-5670652 None:intergenic
GAAGCCGCTAATGGTGTCCT+CGG 0.572523 7.2:+5670648 MS.gene07054:CDS
TCGGACAAAGCATCTGCCAC+GGG 0.574386 7.2:-5670806 None:intergenic
GTTGGAGAACATTAGGGCGA+GGG 0.586730 7.2:+5670605 MS.gene07054:CDS
GGAGAGGAAGCAGAAACTGA+TGG 0.591146 7.2:+5670533 MS.gene07054:CDS
TTCGGACAAAGCATCTGCCA+CGG 0.597740 7.2:-5670807 None:intergenic
GGACGGTGTGAATGGAGCGA+TGG 0.618123 7.2:+5670455 MS.gene07054:CDS
GTGACGAGTTCGGGTTCGGA+CGG 0.621958 7.2:+5670438 MS.gene07054:CDS
CAGATCCACAACTGAACCCG+TGG 0.655694 7.2:+5670790 MS.gene07054:CDS
TTTCGAACCGTGAATCCGCA+CGG 0.677805 7.2:+5670502 MS.gene07054:CDS
CCTCTCCCGTGATCGCCGTG+CGG 0.684095 7.2:-5670517 None:intergenic
GAGGAAGCAGAAACTGATGG+AGG 0.689697 7.2:+5670536 MS.gene07054:CDS
ATTCCTGTATCCGAGCTCCG+AGG 0.746883 7.2:-5670665 None:intergenic

CRISPR-GE

badsite warning sgRNA_sequence Strand Position Region GC_content
ATCTTCAAGATGAGACAAAC+AGG + chr7.2:5670559-5670578 MS.gene07054:CDS 35.0%
AAAGCTGAGAGGGAAAAGAA+TGG + chr7.2:5670741-5670760 MS.gene07054:CDS 40.0%
GCGATTGTTGGAGAACATTA+GGG + chr7.2:5670599-5670618 MS.gene07054:CDS 40.0%
TGAGAGAGAAAAAGCTGAGA+GGG + chr7.2:5670731-5670750 MS.gene07054:CDS 40.0%
TTGTCCGAATCAAGCGATTA+AGG + chr7.2:5670821-5670840 MS.gene07054:CDS 40.0%
! AGTTGTGGATCTGGAATCTT+CGG - chr7.2:5670783-5670802 None:intergenic 40.0%
AAACGAGAATCGGCGATTGT+TGG + chr7.2:5670587-5670606 MS.gene07054:CDS 45.0%
AATGCAAACGAAGCCGCTAA+TGG + chr7.2:5670639-5670658 MS.gene07054:CDS 45.0%
ACAGGTTGCGAAACGAGAAT+CGG + chr7.2:5670577-5670596 MS.gene07054:CDS 45.0%
CTGAGAGAGAAAAAGCTGAG+AGG + chr7.2:5670730-5670749 MS.gene07054:CDS 45.0%
GACGCCTTAATCGCTTGATT+CGG - chr7.2:5670828-5670847 None:intergenic 45.0%
GGCGATTGTTGGAGAACATT+AGG + chr7.2:5670598-5670617 MS.gene07054:CDS 45.0%
AACATTAGGGCGAGGGAAGA+AGG + chr7.2:5670612-5670631 MS.gene07054:CDS 50.0%
AGGCGTCTTCGTCTTCAGAT+TGG + chr7.2:5670841-5670860 MS.gene07054:CDS 50.0%
GAGCGATGGACGAGAGAAAA+AGG + chr7.2:5670469-5670488 MS.gene07054:CDS 50.0%
GAGGAAGCAGAAACTGATGG+AGG + chr7.2:5670536-5670555 MS.gene07054:CDS 50.0%
GGAGAGGAAGCAGAAACTGA+TGG + chr7.2:5670533-5670552 MS.gene07054:CDS 50.0%
GGTTCAACGTGTGACGAGTT+CGG + chr7.2:5670428-5670447 MS.gene07054:CDS 50.0%
GTTCAACGTGTGACGAGTTC+GGG + chr7.2:5670429-5670448 MS.gene07054:CDS 50.0%
GTTGGAGAACATTAGGGCGA+GGG + chr7.2:5670605-5670624 MS.gene07054:CDS 50.0%
TGTTGGAGAACATTAGGGCG+AGG + chr7.2:5670604-5670623 MS.gene07054:CDS 50.0%
TTTCGAACCGTGAATCCGCA+CGG + chr7.2:5670502-5670521 MS.gene07054:CDS 50.0%
! TTCGGACAAAGCATCTGCCA+CGG - chr7.2:5670810-5670829 None:intergenic 50.0%
AGCTCCGAGGACACCATTAG+CGG - chr7.2:5670655-5670674 None:intergenic 55.0%
ATCTGCCACGGGTTCAGTTG+TGG - chr7.2:5670798-5670817 None:intergenic 55.0%
ATTCCTGTATCCGAGCTCCG+AGG - chr7.2:5670668-5670687 None:intergenic 55.0%
CACGGGTTCAGTTGTGGATC+TGG - chr7.2:5670792-5670811 None:intergenic 55.0%
CAGATCCACAACTGAACCCG+TGG + chr7.2:5670790-5670809 MS.gene07054:CDS 55.0%
CTAATGGTGTCCTCGGAGCT+CGG + chr7.2:5670655-5670674 MS.gene07054:CDS 55.0%
GAAGCCGCTAATGGTGTCCT+CGG + chr7.2:5670648-5670667 MS.gene07054:CDS 55.0%
! ACGTGTGACGAGTTCGGGTT+CGG + chr7.2:5670434-5670453 MS.gene07054:CDS 55.0%
! TCGGACAAAGCATCTGCCAC+GGG - chr7.2:5670809-5670828 None:intergenic 55.0%
GGACGGTGTGAATGGAGCGA+TGG + chr7.2:5670455-5670474 MS.gene07054:CDS 60.0%
GTGAATCCGCACGGCGATCA+CGG + chr7.2:5670511-5670530 MS.gene07054:CDS 60.0%
GTGATCGCCGTGCGGATTCA+CGG - chr7.2:5670512-5670531 None:intergenic 60.0%
TCGGGTTCGGACGGTGTGAA+TGG + chr7.2:5670447-5670466 MS.gene07054:CDS 60.0%
TGAATCCGCACGGCGATCAC+GGG + chr7.2:5670512-5670531 MS.gene07054:CDS 60.0%
TGTCCTCGGAGCTCGGATAC+AGG + chr7.2:5670662-5670681 MS.gene07054:CDS 60.0%
! GTGACGAGTTCGGGTTCGGA+CGG + chr7.2:5670438-5670457 MS.gene07054:CDS 60.0%
CCTCTCCCGTGATCGCCGTG+CGG - chr7.2:5670520-5670539 None:intergenic 70.0%
CCGCACGGCGATCACGGGAG+AGG + chr7.2:5670517-5670536 MS.gene07054:CDS 75.0%


Chromosome Type Strat End Strand Name
chr7.2 gene 5670420 5670875 5670420 ID=MS.gene07054
chr7.2 mRNA 5670420 5670875 5670420 ID=MS.gene07054.t1;Parent=MS.gene07054
chr7.2 exon 5670420 5670875 5670420 ID=MS.gene07054.t1.exon1;Parent=MS.gene07054.t1
chr7.2 CDS 5670420 5670875 5670420 ID=cds.MS.gene07054.t1;Parent=MS.gene07054.t1
Gene Sequence

>MS.gene07054

ATGGCTTCGGTTCAACGTGTGACGAGTTCGGGTTCGGACGGTGTGAATGGAGCGATGGACGAGAGAAAAAGGAAGAGAATGATTTCGAACCGTGAATCCGCACGGCGATCACGGGAGAGGAAGCAGAAACTGATGGAGGATCTTCAAGATGAGACAAACAGGTTGCGAAACGAGAATCGGCGATTGTTGGAGAACATTAGGGCGAGGGAAGAAGGTTTCAATGCAAACGAAGCCGCTAATGGTGTCCTCGGAGCTCGGATACAGGAATTGACAGATCAATTGAAGTTTCTGAACTCAATCATTGAAAAAGCTGAGAGAGAAAAAGCTGAGAGGGAAAAGAATGGATTTTCTGTTGAGATTCCGAAGATTCCAGATCCACAACTGAACCCGTGGCAGATGCTTTGTCCGAATCAAGCGATTAAGGCGTCTTCGTCTTCAGATTGGTTCTTGCATTGA
Protein sequence

>MS.gene07054.t1

MASVQRVTSSGSDGVNGAMDERKRKRMISNRESARRSRERKQKLMEDLQDETNRLRNENRRLLENIRAREEGFNANEAANGVLGARIQELTDQLKFLNSIIEKAEREKAEREKNGFSVEIPKIPDPQLNPWQMLCPNQAIKASSSSDWFLH